Predictors
  • Alpha&ESM hFolds -A database for the comparison of structural models predicted by ESMFold and AlphaFold2 for the human proteome.
  • BaCelLo - Balanced subCellular Localization predictor
  • BAR 3.0- Bologna Annotation Resource (v.3)
  • BAR+ - Bologna Annotation Resource (v.2)
  • BetAware - Detection and topology prediction of Prokaryotic outer-membrane beta-barrel proteins
  • Bioinformatic Sweeties - A suite of user-friendly bioinformatic tools for characterizing proteins and their variants.
  • BetAware-Deep - Detection and topology prediction of Prokaryotic outer-membrane beta-barrel proteins with Deep learning
  • BUSCA - Prediction of protein sub-cellular localization intergrating different tools/predictors
  • CCHMM - Predictor of Coiled-Coils Regions in Proteins
  • CCHMMPROF - Predictor of Coiled-Coils Regions in Proteins exploiting evolutionary information
  • CoCoNat - Predictor of Coiled-Coils Regions in Proteins exploiting protein language models
  • CORNET - Predictor of Residue Contacts in Proteins
  • DAR - Disease and Rectome database
  • DCON - Predictor of Disulfide Connectivity in Proteins
  • DeepREx - A Deep-learning based method for the prediction of Residue solvent Exposure starting from protein sequence
  • DeepSig - Prediction of signal peptides based on deep learning
  • DeepMito - Prediction of sub-mitochondrial localization based on deep learning
  • DisLocate - Finding Disulfide bonds in Eukaryotes with predicted subcellular Localization
  • E-pRSA - Embeddings improve the prediction of residue Relative Solvent Accessibility in protein sequence
  • E-SNPs&GO - Prediction of variant pathogenicity with embeddings
    • FT-COMAR - Fault Tolerance Reconstruction of 3D Structure from Protein Contact Maps
    • HIPPIE - Protease Inhibitor engine
    • I-MUTANT 2.0 - Support Vector Machines based Predictor of Protein stability Changes upon Single Point Mutation from the Protein Sequence and Structure
    • I-MUTANT Suite - Support Vector Machines based Predictor of Protein stability Changes upon Single Point Mutation from the Protein Sequence and Structure (three states) and of human Deleterious Single Nucleotide Polymorphysms
    • INPS-MD - Impact of Non-synonymous mutations on Protein Stability - Multi Dimension: predictor of protein stability change upon single point mutation using protein sequence or 3D structure
    • ISPRED4 - Predictor of Protein Interaction Sites starting from structure
    • ISPRED-SEQ - Predictor of Protein Interaction Sites starting from sequence
    • K-Fold - Predictor of the Protein Folding Mechanism and Rate
    • MemLoci - Subcellular Localization Predictor for Membrane Proteins
    • MemPype - A pipeline for predicting the topology and the localization of membrane proteins
    • NET-GE - Network-based gene enrichment
    • PhD-SNP - Support Vector Machines based Predictor of human Deleterious Single Nucleotide Polymorphysms
    • PhenPath - Database and tool for Phenotype-Disease-Gene Associations
    • PredGPI - Predictor of GPI-Anchored Proteins
    • SChloro - Predictor of protein sub-chloroplastic localization
    • SNPs&GO - Predictor of Human Disease-related Mutations in Proteins with Functional Annotations
    • SPEPLip - Predictor of Signal Peptide and Lipoprotein Cleavage Sites in Proteins
    • SVMyr - Prediction of protein G-myristoylation sites
    • TPpred - Predictor of Organelle Targeting Peptides
    • TPpred2 - Predictor of Mitochondrial-Targeting Signals in Proteins
    • TPpred3 - Predictor of Mitochondrial and Chloroplastic Targeting Peptides in Proteins
    • YAP - Yet Another Alignment Program (Pairwise Sequence Alignment Using Secondary Structures)
    Application Servers
    • TRAMPLE: the transmembrane protein labelling environment
    • PONGO: a web server for multiple predictions of all-alpha transmembrane proteins
    Databases
    • Alpha&ESM hFolds A database for the comparison of structural models predicted by ESMFold and AlphaFold2 for 42,942 human proteins
      • eDGAR a database of Disease-Gene Associations with annotated Relationships
      • eSLDB - eukaryotic Subcellular Localization DataBase
      • PhenPath - Database and tool for Phenotype-Disease-Gene Associations
      • ZenPatches - Database of predicted protein interaction sites
      • DBMFHS - Data Base of Minimally-Frustrated Helical Segments